PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11751-11800 / 86044 show all | |||||||||||||||
| astatham-gatk | SNP | * | map_l100_m0_e0 | * | 92.7245 | 86.6569 | 99.7057 | 72.7426 | 28459 | 4382 | 28455 | 84 | 35 | 41.6667 | |
| astatham-gatk | SNP | tv | * | het | 99.2722 | 98.5893 | 99.9647 | 23.3815 | 583349 | 8347 | 583282 | 206 | 35 | 16.9903 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.8050 | 86.0815 | 98.3438 | 38.2217 | 2344 | 379 | 2494 | 42 | 35 | 83.3333 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 47.6190 | 44.4444 | 51.2821 | 43.8849 | 12 | 15 | 40 | 38 | 35 | 92.1053 | |
| anovak-vg | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 47.6231 | 55.9322 | 41.4634 | 53.9326 | 33 | 26 | 34 | 48 | 35 | 72.9167 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 62.2688 | 72.0280 | 54.8387 | 90.2559 | 103 | 40 | 119 | 98 | 35 | 35.7143 | |
| asubramanian-gatk | SNP | * | map_siren | * | 76.4845 | 61.9738 | 99.8677 | 70.7590 | 90623 | 55605 | 90605 | 120 | 35 | 29.1667 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 0.0000 | 0.0000 | 60.9375 | 95.0788 | 0 | 0 | 78 | 50 | 35 | 70.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | HG002compoundhet | het | 53.8274 | 51.6049 | 56.2500 | 59.7990 | 209 | 196 | 45 | 35 | 35 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.4696 | 97.9853 | 95.0000 | 72.7838 | 535 | 11 | 665 | 35 | 35 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m1_e0 | * | 97.0472 | 96.6450 | 97.4528 | 83.5060 | 1786 | 62 | 2219 | 58 | 35 | 60.3448 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 73.1236 | 61.8658 | 89.3899 | 45.9110 | 378 | 233 | 337 | 40 | 35 | 87.5000 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e1 | homalt | 74.3512 | 83.5821 | 66.9565 | 84.9279 | 56 | 11 | 77 | 38 | 35 | 92.1053 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 93.4170 | 87.7992 | 99.8027 | 58.9642 | 22265 | 3094 | 22261 | 44 | 35 | 79.5455 | |
| gduggal-bwavard | SNP | * | map_l250_m2_e1 | het | 87.2283 | 97.7964 | 78.7214 | 93.0803 | 5148 | 116 | 5098 | 1378 | 35 | 2.5399 | |
| gduggal-bwavard | SNP | tv | HG002complexvar | homalt | 98.3914 | 96.9047 | 99.9244 | 20.9085 | 92167 | 2944 | 89912 | 68 | 35 | 51.4706 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_siren | * | 59.2100 | 61.5385 | 57.0513 | 92.6450 | 88 | 55 | 89 | 67 | 35 | 52.2388 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.7151 | 96.2963 | 91.2688 | 89.1952 | 1248 | 48 | 1338 | 128 | 35 | 27.3438 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4871 | 98.2529 | 96.7332 | 77.3918 | 3093 | 55 | 3198 | 108 | 35 | 32.4074 | |
| qzeng-custom | SNP | tv | HG002compoundhet | homalt | 98.8473 | 99.1145 | 98.5816 | 49.2075 | 3358 | 30 | 2780 | 40 | 35 | 87.5000 | |
| qzeng-custom | SNP | tv | map_l150_m2_e1 | homalt | 82.0801 | 70.1984 | 98.8034 | 73.9699 | 2902 | 1232 | 2890 | 35 | 35 | 100.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.5530 | 86.6267 | 94.8521 | 57.6727 | 868 | 134 | 866 | 47 | 35 | 74.4681 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.7368 | 93.2088 | 96.3158 | 71.7892 | 1098 | 80 | 1098 | 42 | 35 | 83.3333 | |
| qzeng-custom | INDEL | * | map_l125_m1_e0 | het | 82.2615 | 74.0824 | 92.4708 | 92.9115 | 989 | 346 | 1265 | 103 | 35 | 33.9806 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m2_e1 | * | 74.8886 | 69.8182 | 80.7531 | 82.6560 | 192 | 83 | 193 | 46 | 35 | 76.0870 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.1542 | 97.8551 | 98.4553 | 37.1727 | 3376 | 74 | 3378 | 53 | 35 | 66.0377 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.3434 | 99.6186 | 97.1004 | 38.0755 | 1306 | 5 | 1306 | 39 | 35 | 89.7436 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m1_e0 | * | 89.8865 | 83.4416 | 97.4105 | 87.5446 | 1542 | 306 | 1768 | 47 | 35 | 74.4681 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m2_e0 | * | 90.1218 | 83.8120 | 97.4590 | 87.8583 | 1605 | 310 | 1841 | 48 | 35 | 72.9167 | |
| qzeng-custom | INDEL | I16_PLUS | HG002complexvar | homalt | 87.9947 | 95.1456 | 81.8436 | 65.5106 | 294 | 15 | 293 | 65 | 35 | 53.8462 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | * | * | 96.9914 | 94.9292 | 99.1450 | 56.0917 | 6440 | 344 | 6378 | 55 | 35 | 63.6364 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.0206 | 93.2787 | 98.9286 | 61.7804 | 4663 | 336 | 4617 | 50 | 35 | 70.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.0206 | 93.2787 | 98.9286 | 61.7804 | 4663 | 336 | 4617 | 50 | 35 | 70.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.2206 | 92.5954 | 97.9989 | 55.8475 | 3689 | 295 | 3722 | 76 | 35 | 46.0526 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 74.0374 | 59.1106 | 99.0498 | 29.9414 | 4785 | 3310 | 4378 | 42 | 35 | 83.3333 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 77.0538 | 84.4720 | 70.8333 | 31.6726 | 136 | 25 | 136 | 56 | 35 | 62.5000 | |
| cchapple-custom | INDEL | I6_15 | HG002complexvar | homalt | 98.1176 | 99.2586 | 97.0025 | 48.4991 | 1205 | 9 | 1165 | 36 | 35 | 97.2222 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.0468 | 95.1501 | 99.0206 | 54.5933 | 3708 | 189 | 3842 | 38 | 35 | 92.1053 | |
| ciseli-custom | INDEL | * | map_l125_m0_e0 | homalt | 64.5934 | 55.9859 | 76.3285 | 90.4255 | 159 | 125 | 158 | 49 | 35 | 71.4286 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 16.6667 | 93.6609 | 0 | 0 | 20 | 100 | 35 | 35.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2667 | 99.3211 | 99.2123 | 71.8135 | 5559 | 38 | 5542 | 44 | 35 | 79.5455 | |
| ckim-gatk | SNP | ti | map_l100_m0_e0 | het | 86.7938 | 78.2593 | 97.4176 | 85.5089 | 10943 | 3040 | 10940 | 290 | 35 | 12.0690 | |
| ckim-gatk | SNP | ti | map_l150_m2_e0 | * | 81.1968 | 69.3155 | 97.9938 | 88.2579 | 14218 | 6294 | 14214 | 291 | 35 | 12.0275 | |
| ckim-gatk | SNP | ti | map_l150_m2_e1 | * | 81.3077 | 69.4784 | 97.9917 | 88.2788 | 14398 | 6325 | 14394 | 295 | 35 | 11.8644 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 93.0016 | 90.9261 | 95.1741 | 68.8082 | 1944 | 194 | 1913 | 97 | 35 | 36.0825 | |
| ckim-isaac | INDEL | * | map_siren | het | 87.7323 | 79.7249 | 97.5278 | 80.3155 | 3594 | 914 | 3590 | 91 | 35 | 38.4615 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.0342 | 91.9149 | 98.3726 | 47.9336 | 1296 | 114 | 2962 | 49 | 35 | 71.4286 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 72.3119 | 89.8851 | 60.4863 | 71.9881 | 391 | 44 | 398 | 260 | 35 | 13.4615 | |
| ciseli-custom | INDEL | D1_5 | map_l125_m0_e0 | * | 74.1346 | 69.5565 | 79.3578 | 92.2309 | 345 | 151 | 346 | 90 | 35 | 38.8889 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 77.7092 | 98.6486 | 64.1026 | 79.2920 | 73 | 1 | 75 | 42 | 35 | 83.3333 | |